WNT/β-catenin pathway -> disregulation in melanoma
G007LK -> decreases WNT/β-catenin signaling
Two data sets and two metadata sets (mouse and human)
Goal was to identify up and down regulated genes after G007LK treatment
Approximately equal amounts of significantly regulated genes in each treatment
However, the overlap is very small
PCA.1 The way the cell lines are segregated indicates that the biological background outweighs the direct impact of the treatment in regards to gene expression variance
PCA.2 Outliers like SkMEL28 and A375, along with the distinctive positioning of WM852, suggested unique gene expression profiles potentially associated with the response to G007.LK.
This limitation in explaining variance by the principal components underscores the complex nature of gene expression changes in the human cell lines.
In our mouse model, the BVES gene appears to be the most significantly impacted.This gene contributes to regeneration processes
This transition between species allowed us to explore cross-species insights in regards to the effect of the G007.LK compound
More extensive work is needed to fully understand the impact of the G007.LK in gene expression and cellular pathway across different melanoma cells
Jo Waaler (2022) Human melanoma cell lines treated with G007-LK. BioStudies, E-MTAB-8438. Retrieved from https://www.ebi.ac.uk/biostudies/arrayexpress/studies/E-MTAB-8438
Jo Waaler (2021). Mouse melanoma cell line B16-F10 treated with G007-LK. BioStudies, E-MTAB-8101. Retrieved from https://www.ebi.ac.uk/biostudies/arrayexpress/studies/E-MTAB-8101
Waaler, Jo, et al. “Tankyrase Inhibition Sensitizes Melanoma to PD-1 Immune Checkpoint Blockade in Syngeneic Mouse Models.” Communications Biology, vol. 3, no. 1, 24 Apr. 2020, https://doi.org/10.1038%2Fs42003-020-0916-2 Accessed 25 Nov. 2023
Martín‐Fernández, Josep Antoni, Javier Palarea‐Albaladejo, and Ricardo Antonio Olea. “Dealing with zeros.” Compositional data analysis: Theory and applications (2011): 43-58.
R for Bio Data Science